Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105933
Name   oriT_pMB4861_1 in_silico
Organism   Enterobacter hormaechei strain 1074
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP103675 (66175..66281 [-], 107 nt)
oriT length   107 nt
IRs (inverted repeats)      88..93, 95..100  (AAATAA..TTATTT)
 78..83, 95..100  (AAATAA..TTATTT)
 56..61, 66..71  (TAAGTT..AACTTA)
 27..32, 39..44  (GCAAAA..TTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 107 nt

>oriT_pMB4861_1
CTCACCACAAAAGCACCACACCCTACGCAAAACGTACTTTTTGCTGATTGGCTATTAAGTTCAGTAACTTATCGTTTAAATAATGTGAAATAATTTATTTTACATTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4001 GenBank   WP_259385537
Name   traI_M5T14_RS22450_pMB4861_1 insolico UniProt ID   _
Length   1745 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1745 a.a.        Molecular weight: 189235.43 Da        Isoelectric Point: 6.4518

>WP_259385537.1 conjugative transfer relaxase/helicase TraI [Enterobacter hormaechei]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGEGAKALGLSGSVDVKTFTRVLEGKLPDGSDLSRAQ
DGTNKHRPGYDLTFSAPKSISVMAMLGGDTRLIDAHNRAVDTAIKQIEALASTRVMTDGKSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANITQHDGTWRTLSSDKIGKTGFIENVYANQIAFGRLYRAALKDDVTA
MGYETETVGKHGMWELKGVPTEPYSSRSKAIREAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMAT
LKETGFDIQAYREAADQRARGGDIPVTTPEPVNVDTAVGQSIAMLSDRRARFTYSELLATTLGQLPARPG
MIEQAREGIDAAIKNEQMIPLDKEKGLFTSNVHVLDELSVSALSRELQQQGRVDVFPDKSVPRSRAFGDA
VSVLAQDRSPVAIISGQGGAAGQRERVAELAMMAREQGRDVQIMAADRRSAANLARDERLSGELITDRRG
LTEGMTFIPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTRVSVISEPDRRERYDRLAADFAKSIRAGEEAVVQISGAREQAALAATVRDALKGEKVLGERDISIT
TLEPVWLDGRHRQVRDHYREGMVMERWNAEERSRERFVIDRVTARNNSLTLRNAQGETQVTRLTELDSSW
SLYRTSTLQVTEGDRLAVLGQTQGARLKGGDSVTVTGIDEKGIHVSLPGRKTQVVLPAGDSPFTAPKIGQ
GWVESPGRSVSDSATVYASLTQREMDNATLNGLARSGAEIRLYSAQTVQKTEEKLSRQSAWTVVTAQVKE
AAGKDSLGEALAHQKAALHTPEQQAIHLAIPSLEGNGLAFTRPQLMAAAKDFAQDKLSLAAIEDEIARQT
RSGALISVPVSQGNELQQLVSRQTYNAEKSIIRHVLEGKDAVTPLMGKVPDAQLAGLTDGQQNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEEQRPRVIGVAPTHRAVGEMRDAGVPESQTLAAFIHDTK
QQLRGGERPDFSNVLFLIDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DTAVMQEIVRQTPALRPAVYSLIERNIGSALATLESVAPQQVPRRPDAWQPDGSVMEFSREQEKAIADAI
KAGDLAPGGQPATLLEAIVKDYTGRTPQAQTIVITALNADRRQLNAMIHDARREAGELGEKEAIVPVLTP
ANIRDGELRRMDTWQTHASSMVLLDNTYYRIDALDKDAHLVTLKDAQGNTRSLSPAQAVTEGVTLYRQDT
IAVSQGDRMRFSKSDNERGFVANSVWTVSDIKGDIVTLTDGKQTRTVNPSAERAEQHIDLAYAVTIYGAQ
GASEPFSISLQGTDGGRKQMVNFESAYVALSRMKQHAQVYTDNREKWVAAMEKSQAKSTAHDIVEPRNDR
AVANAARLTASAKGLGEVPAGRAALRQAGLRPETTLAKFISPGRKYPQPHVALPAFDRNGRQAGVWLSTL
TDGDGRLQGLSGEGRVMGSGDAAFAGLQASRNGESLMAGDMAEGVRLARENPQSGVVVRIGDAEGRPWNP
GAITGGRVWADVVPDGTGTQHGEKIPPEVLAQQALEAQQRRELEKRAEDAVRELARGGEKSAEPADAVRE
LARELGEGKNRERFTDVTLPESPDVRARDEAVSRVAHENVQRDRLQQMERDTVRVLEREKTPGGD

  Protein domains


Predicted by InterproScan.

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(573-625)

DNA helicase TraI (TraI_C)

(1428-1549)

AAA domain (AAA_30)

(967-1154)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(631-710)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




T4CP

ID   4006 GenBank   WP_259385538
Name   traD_M5T14_RS22455_pMB4861_1 insolico UniProt ID   _
Length   731 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 731 a.a.        Molecular weight: 82330.96 Da        Isoelectric Point: 5.0903

>WP_259385538.1 type IV conjugative transfer system coupling protein TraD [Enterobacter hormaechei]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLVILFGIIVALTLAVKLSWQTFVNGMAWYWCQTLAPMR
DIFRSQPVYTIRYYGKELKYNAQQLLQDKYVIWCADQVWTAFILAAIIAAVVCVIAFFVTTWVLGHQGKQ
QSEDEVTGGRQLTDDPREVARMLKRDNLASDIKIGDLPLIKNSEIQNFCLHGTVGAGKSEVIRRLMNYAR
KRGDMVIVYDRSCEFVKSYYDPAIDKILNPMDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLQNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDGRNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDIQTLPDLSCYVTLPGPYPAVKMAL
KYQERPKVAPEFIQRHIDTQAEQRLNAALAAREAESRSVAMLFEPDTEVVVPVAGPENAGQPQQPQQPQQ
PQQPQQPQPAPVITPRPAPVAASTSVAGTGGTESVLETKAEEAEQLPPGIDESGEVVDMAAWEAWQAEQD
ELTPQERQRREEVNINVHRTHDDDLEPGGYI

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 43309..66825

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
M5T14_RS22455 (M5T14_22455) 43309..45504 - 2196 WP_259385538 type IV conjugative transfer system coupling protein TraD virb4
M5T14_RS22460 (M5T14_22460) 45869..46402 - 534 WP_063449750 hypothetical protein -
M5T14_RS22465 (M5T14_22465) 46413..49295 - 2883 WP_259385474 conjugal transfer mating-pair stabilization protein TraG traG
M5T14_RS22470 (M5T14_22470) 49295..50665 - 1371 WP_063449752 conjugal transfer pilus assembly protein TraH traH
M5T14_RS22475 (M5T14_22475) 50652..51047 - 396 WP_259385475 conjugal transfer protein TrbF -
M5T14_RS22480 (M5T14_22480) 51076..51624 - 549 WP_063449754 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
M5T14_RS22485 (M5T14_22485) 51614..51859 - 246 WP_259385476 type-F conjugative transfer system pilin chaperone TraQ -
M5T14_RS22490 (M5T14_22490) 51876..52583 - 708 WP_063449815 type-F conjugative transfer system pilin assembly protein TraF traF
M5T14_RS22495 (M5T14_22495) 52641..54494 - 1854 WP_259385477 type-F conjugative transfer system mating-pair stabilization protein TraN traN
M5T14_RS22500 (M5T14_22500) 54491..55114 - 624 WP_063449757 type-F conjugative transfer system pilin assembly protein TrbC trbC
M5T14_RS22505 (M5T14_22505) 55129..56115 - 987 WP_259385478 conjugal transfer pilus assembly protein TraU traU
M5T14_RS22510 (M5T14_22510) 56112..56759 - 648 WP_259385479 type-F conjugative transfer system protein TraW traW
M5T14_RS22515 (M5T14_22515) 56759..57106 - 348 WP_259385480 type-F conjugative transfer system protein TrbI -
M5T14_RS22520 (M5T14_22520) 57103..59733 - 2631 WP_259385481 type IV secretion system protein TraC virb4
M5T14_RS22525 (M5T14_22525) 59897..60127 - 231 WP_063449762 TraR/DksA C4-type zinc finger protein -
M5T14_RS22530 (M5T14_22530) 60249..60785 - 537 WP_259385482 type IV conjugative transfer system lipoprotein TraV traV
M5T14_RS22535 (M5T14_22535) 60796..62199 - 1404 WP_259385483 F-type conjugal transfer pilus assembly protein TraB traB
M5T14_RS22540 (M5T14_22540) 62186..62929 - 744 WP_259385484 type-F conjugative transfer system secretin TraK traK
M5T14_RS22545 (M5T14_22545) 62916..63482 - 567 WP_063931979 type IV conjugative transfer system protein TraE traE
M5T14_RS22550 (M5T14_22550) 63497..63802 - 306 WP_259385485 type IV conjugative transfer system protein TraL traL
M5T14_RS22555 (M5T14_22555) 63939..64289 - 351 WP_259385486 type IV conjugative transfer system pilin TraA -
M5T14_RS22560 (M5T14_22560) 64336..64560 - 225 WP_046622499 TraY domain-containing protein -
M5T14_RS22565 (M5T14_22565) 64639..65343 - 705 WP_259385487 PAS fold family protein -
M5T14_RS22570 (M5T14_22570) 65527..65922 - 396 WP_259385488 conjugal transfer relaxosome DNA-binding protein TraM -
M5T14_RS22575 (M5T14_22575) 66352..66825 + 474 WP_259385489 transglycosylase SLT domain-containing protein virB1
M5T14_RS22580 (M5T14_22580) 66865..67395 - 531 WP_259385490 antirestriction protein -
M5T14_RS22585 (M5T14_22585) 68070..68900 - 831 WP_259385491 SAM-dependent methyltransferase -
M5T14_RS22590 (M5T14_22590) 68946..69209 - 264 WP_063865677 hypothetical protein -
M5T14_RS22595 (M5T14_22595) 69297..69653 - 357 WP_232950126 hypothetical protein -
M5T14_RS22600 (M5T14_22600) 69700..69981 - 282 WP_259385492 hypothetical protein -
M5T14_RS22605 (M5T14_22605) 70043..70432 - 390 WP_259385493 ammonia monooxygenase -
M5T14_RS22610 (M5T14_22610) 70919..71335 + 417 WP_232950123 hypothetical protein -

Host bacterium

ID   6370 GenBank   NZ_CP103675
Plasmid name   pMB4861_1 Incompatibility group   IncFIB
Plasmid size   86737 bp Coordinate of oriT [Strand]   66175..66281 [-]
Host baterium   Enterobacter hormaechei strain 1074

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -